Coexpression cluster:C2281

Full id: C2281_hairy_CD19_b_vein_appendix_lymph_tonsil

Phase1 CAGE Peaks

Hg19::chr14:106114704..106114716,-	p1@ENST00000460164
Hg19::chr14:106114739..106114746,-	p2@ENST00000460164
Hg19::chr21:42602057..42602083,+	p7@BACE2
Hg19::chr2:89161064..89161082,-	p1@IGKJ2

Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

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No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

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GO ID	GO name	FDR corrected p-value
GO:0042985	negative regulation of amyloid precursor protein biosynthetic process	0.00231808548216178
GO:0042983	amyloid precursor protein biosynthetic process	0.00231808548216178
GO:0042984	regulation of amyloid precursor protein biosynthetic process	0.00231808548216178
GO:0009049	aspartic-type signal peptidase activity	0.00231808548216178
GO:0016486	peptide hormone processing	0.00259625574002119
GO:0009003	signal peptidase activity	0.00288472860002355
GO:0033619	membrane protein proteolysis	0.00288472860002355
GO:0006509	membrane protein ectodomain proteolysis	0.00288472860002355
GO:0042982	amyloid precursor protein metabolic process	0.00288472860002355
GO:0050435	beta-amyloid metabolic process	0.00315259625574002
GO:0004194	pepsin A activity	0.00438328891172409
GO:0009306	protein secretion	0.00880872483221476
GO:0004190	aspartic-type endopeptidase activity	0.011656658424585
GO:0042445	hormone metabolic process	0.011656658424585
GO:0016485	protein processing	0.0122394913458142
GO:0009101	glycoprotein biosynthetic process	0.0200718931161302
GO:0006417	regulation of translation	0.0200718931161302
GO:0031326	regulation of cellular biosynthetic process	0.0201209819851642
GO:0009100	glycoprotein metabolic process	0.0201209819851642
GO:0009889	regulation of biosynthetic process	0.0201209819851642
GO:0032940	secretion by cell	0.0262274814553161
GO:0046903	secretion	0.0323689027327318
GO:0051246	regulation of protein metabolic process	0.0340254634251225

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br>disease_data<br>

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Cell Type

Ontology term	p-value	n
B cell	2.89e-44	14
lymphocyte of B lineage	4.01e-38	24
pro-B cell	4.01e-38	24
lymphoid lineage restricted progenitor cell	4.40e-18	52
lymphocyte	1.14e-17	53
common lymphoid progenitor	1.14e-17	53
nucleate cell	6.91e-17	55
nongranular leukocyte	2.87e-10	115
leukocyte	5.19e-09	136
hematopoietic lineage restricted progenitor cell	1.58e-07	120

Uber Anatomy

Ontology term	p-value	n
blood	6.75e-17	15
haemolymphatic fluid	6.75e-17	15
organism substance	6.75e-17	15
hemopoietic organ	1.65e-14	7
immune organ	1.65e-14	7
spleen	2.71e-13	3
gastrointestinal system mesentery	2.71e-13	3
stomach region	2.71e-13	3
mesentery	2.71e-13	3
gastrointestinal system serosa	2.71e-13	3
mesentery of stomach	2.71e-13	3
gut mesentery	2.71e-13	3
dorsal mesentery	2.71e-13	3
dorsal mesogastrium	2.71e-13	3
peritoneal cavity	2.71e-13	3
spleen primordium	2.71e-13	3
adult organism	6.68e-10	114
hemolymphoid system	3.20e-07	108
gastrointestinal system	5.75e-07	25

Disease

Ontology term	p-value	n
lymphoma	8.50e-07	10

Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
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ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
BATF#10538	2	12.1789008961518	0.00956675880504781	0.0360129297448237

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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This analysis result is provided for C0 - C305 clusters.